data_BGM # _chem_comp.id BGM _chem_comp.name "8-BROMO-2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H13 Br N5 O7 P" _chem_comp.mon_nstd_parent_comp_id DG _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2002-11-21 _chem_comp.pdbx_modified_date 2024-03-21 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 426.117 _chem_comp.one_letter_code G _chem_comp.three_letter_code BGM _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1N7A _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal BGM P P P 0 1 N N N N N N 11.870 17.189 57.614 -4.873 -0.085 -1.207 P BGM 1 BGM OP1 O1P O 0 1 N N N N N N 12.970 18.062 58.071 -5.967 -0.410 -0.264 OP1 BGM 2 BGM OP2 O2P O 0 1 N N N N N N 10.861 17.778 56.725 -4.665 1.510 -1.258 OP2 BGM 3 BGM "O5'" "O5'" O 0 1 N N N N N N 12.533 15.896 56.982 -3.512 -0.789 -0.711 "O5'" BGM 4 BGM "C5'" "C5'" C 0 1 N N N N N N 11.692 14.763 56.713 -2.969 -0.597 0.597 "C5'" BGM 5 BGM "C4'" "C4'" C 0 1 N N R N N N 12.607 13.719 56.107 -1.677 -1.406 0.735 "C4'" BGM 6 BGM "O4'" "O4'" O 0 1 N N N N N N 11.998 12.424 56.238 -0.653 -0.882 -0.137 "O4'" BGM 7 BGM "C1'" "C1'" C 0 1 N N R N N N 11.998 11.748 54.968 0.611 -1.318 0.389 "C1'" BGM 8 BGM N9 N9 N 0 1 Y N N N N N 10.821 10.901 54.966 1.630 -0.292 0.154 N9 BGM 9 BGM C8 C8 C 0 1 Y N N N N N 9.480 11.209 55.074 1.478 1.053 0.334 C8 BGM 10 BGM N7 N7 N 0 1 Y N N N N N 8.682 10.178 55.088 2.586 1.666 0.030 N7 BGM 11 BGM C5 C5 C 0 1 Y N N N N N 9.561 9.109 54.981 3.510 0.754 -0.362 C5 BGM 12 BGM C4 C4 C 0 1 Y N N N N N 10.863 9.534 54.910 2.910 -0.507 -0.282 C4 BGM 13 BGM N3 N3 N 0 1 N N N N N N 11.976 8.784 54.817 3.612 -1.597 -0.611 N3 BGM 14 BGM C2 C2 C 0 1 N N N N N N 11.714 7.492 54.786 4.862 -1.506 -1.008 C2 BGM 15 BGM N2 N2 N 0 1 N N N N N N 12.732 6.642 54.717 5.542 -2.652 -1.336 N2 BGM 16 BGM N1 N1 N 0 1 N N N N N N 10.453 6.956 54.851 5.501 -0.306 -1.104 N1 BGM 17 BGM C6 C6 C 0 1 N N N N N N 9.304 7.724 54.955 4.853 0.839 -0.795 C6 BGM 18 BGM O6 O6 O 0 1 N N N N N N 8.187 7.153 55.010 5.417 1.917 -0.876 O6 BGM 19 BGM "C2'" "C2'" C 0 1 N N N N N N 12.016 12.862 53.945 0.426 -1.535 1.904 "C2'" BGM 20 BGM "C3'" "C3'" C 0 1 N N S N N N 12.962 13.861 54.630 -1.071 -1.228 2.151 "C3'" BGM 21 BGM "O3'" "O3'" O 0 1 N N N N N N 14.348 13.554 54.447 -1.639 -2.163 3.070 "O3'" BGM 22 BGM OP3 O3P O 0 1 N Y N N N N ? ? ? -5.252 -0.625 -2.675 OP3 BGM 23 BGM BR BR BR 0 0 N N N N N N ? ? ? -0.103 1.898 0.935 BR BGM 24 BGM HOP2 HOP2 H 0 0 N N N N N N 11.074 18.689 56.563 -3.961 1.796 -1.857 HOP2 BGM 25 BGM "H5'" "H5'1" H 0 1 N N N N N N 11.243 14.387 57.644 -2.753 0.460 0.750 "H5'" BGM 26 BGM "H5''" "H5'2" H 0 0 N N N N N N 10.895 15.034 56.005 -3.689 -0.933 1.342 "H5''" BGM 27 BGM "H4'" "H4'" H 0 1 N N N N N N 13.548 13.726 56.677 -1.860 -2.459 0.524 "H4'" BGM 28 BGM "H1'" "H1'" H 0 1 N N N N N N 12.906 11.137 54.858 0.909 -2.252 -0.087 "H1'" BGM 29 BGM H21 H21 H 0 1 N N N N N N 13.670 6.987 54.690 5.101 -3.513 -1.272 H21 BGM 30 BGM H22 H22 H 0 1 N N N N N N 12.560 5.657 54.692 6.465 -2.601 -1.630 H22 BGM 31 BGM H1 H1 H 0 1 N N N N N N 10.358 5.961 54.822 6.424 -0.274 -1.401 H1 BGM 32 BGM "H2'" "H2'1" H 0 1 N N N N N N 12.418 12.520 52.980 0.653 -2.567 2.172 "H2'" BGM 33 BGM "H2''" "H2'2" H 0 0 N N N N N N 11.014 13.290 53.794 1.055 -0.846 2.468 "H2''" BGM 34 BGM "H3'" "H3'" H 0 1 N N N N N N 12.733 14.881 54.288 -1.205 -0.206 2.506 "H3'" BGM 35 BGM "HO3'" H3T H 0 0 N Y N N N N 14.573 13.641 53.528 -1.291 -2.091 3.970 "HO3'" BGM 36 BGM HOP3 HOP3 H 0 0 N Y N N N N ? ? ? -6.063 -0.243 -3.038 HOP3 BGM 37 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal BGM P OP1 DOUB N N 1 BGM P OP2 SING N N 2 BGM P "O5'" SING N N 3 BGM P OP3 SING N N 4 BGM OP2 HOP2 SING N N 5 BGM "O5'" "C5'" SING N N 6 BGM "C5'" "C4'" SING N N 7 BGM "C5'" "H5'" SING N N 8 BGM "C5'" "H5''" SING N N 9 BGM "C4'" "O4'" SING N N 10 BGM "C4'" "C3'" SING N N 11 BGM "C4'" "H4'" SING N N 12 BGM "O4'" "C1'" SING N N 13 BGM "C1'" N9 SING N N 14 BGM "C1'" "C2'" SING N N 15 BGM "C1'" "H1'" SING N N 16 BGM N9 C8 SING Y N 17 BGM N9 C4 SING Y N 18 BGM C8 N7 DOUB Y N 19 BGM C8 BR SING N N 20 BGM N7 C5 SING Y N 21 BGM C5 C4 DOUB Y N 22 BGM C5 C6 SING N N 23 BGM C4 N3 SING N N 24 BGM N3 C2 DOUB N N 25 BGM C2 N2 SING N N 26 BGM C2 N1 SING N N 27 BGM N2 H21 SING N N 28 BGM N2 H22 SING N N 29 BGM N1 C6 SING N N 30 BGM N1 H1 SING N N 31 BGM C6 O6 DOUB N N 32 BGM "C2'" "C3'" SING N N 33 BGM "C2'" "H2'" SING N N 34 BGM "C2'" "H2''" SING N N 35 BGM "C3'" "O3'" SING N N 36 BGM "C3'" "H3'" SING N N 37 BGM "O3'" "HO3'" SING N N 38 BGM OP3 HOP3 SING N N 39 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor BGM SMILES ACDLabs 12.01 "O=P(O)(O)OCC1OC(CC1O)n1c(Br)nc2c1N=C(N)NC2=O" BGM InChI InChI 1.06 "InChI=1S/C10H13BrN5O7P/c11-9-13-6-7(14-10(12)15-8(6)18)16(9)5-1-3(17)4(23-5)2-22-24(19,20)21/h3-5,17H,1-2H2,(H2,19,20,21)(H3,12,14,15,18)/t3-,4+,5+/m0/s1" BGM InChIKey InChI 1.06 KUFMHNJQBUZBPA-VPENINKCSA-N BGM SMILES_CANONICAL CACTVS 3.385 "NC1=Nc2n([C@H]3C[C@H](O)[C@@H](CO[P](O)(O)=O)O3)c(Br)nc2C(=O)N1" BGM SMILES CACTVS 3.385 "NC1=Nc2n([CH]3C[CH](O)[CH](CO[P](O)(O)=O)O3)c(Br)nc2C(=O)N1" BGM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1[C@@H]([C@H](O[C@H]1n2c3c(nc2Br)C(=O)NC(=N3)N)COP(=O)(O)O)O" BGM SMILES "OpenEye OEToolkits" 2.0.7 "C1C(C(OC1n2c3c(nc2Br)C(=O)NC(=N3)N)COP(=O)(O)O)O" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier BGM "SYSTEMATIC NAME" ACDLabs 12.01 ;8-bromo-2'-deoxyguanosine 5'-(dihydrogen phosphate) ; BGM "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{S},5~{R})-5-(2-azanyl-8-bromanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site BGM "Create component" 2002-11-21 RCSB BGM "Modify descriptor" 2011-06-04 RCSB BGM "Other modification" 2024-03-21 RCSB #